genome.fa.s25.2.7.7.80.10.50.1000.33.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   

This is table  33  of  214  ( 25680 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9182665--9182693	3	9.7	3	100	0	58	0	0	31	68	0.89
9182974--9183004	16	1.9	16	100	0	62	38	6	25	29	1.81
9185360--9185407	8	6.1	8	90	4	80	50	0	0	50	1.00
9185360--9185420	15	4.0	15	85	4	68	55	0	0	44	0.99
9185379--9185424	16	2.9	16	87	3	58	60	0	0	39	0.97
9185609--9185652	23	1.9	23	86	9	63	47	0	4	47	1.22
9185767--9185811	19	2.5	18	82	7	56	26	0	6	66	1.16
9187288--9187919	316	2.0	315	92	0	1039	31	19	18	30	1.96
9191451--9191573	29	4.2	29	80	5	131	35	19	4	39	1.73
9191451--9191573	58	2.1	59	83	4	151	35	19	4	39	1.73
9191905--9191974	3	24.7	3	78	16	62	72	0	27	0	0.84
9191907--9191974	17	3.8	17	88	7	82	72	0	27	0	0.85
9191944--9191978	13	2.7	13	90	0	61	82	0	17	0	0.66
9191927--9191978	7	7.3	7	76	20	54	78	0	21	0	0.74
9191911--9191978	23	3.1	22	80	17	79	75	0	25	0	0.81
9192027--9192066	17	2.3	18	83	8	57	37	42	20	0	1.52
9192136--9192188	26	2.0	26	85	0	70	30	45	18	5	1.73
9192268--9192341	11	6.6	11	79	14	80	82	0	16	1	0.74
9192276--9192335	7	8.3	7	82	14	61	85	0	15	0	0.61
9192276--9192341	8	8.2	8	79	11	73	84	0	15	0	0.61
9192270--9192341	28	2.5	30	82	13	98	83	0	15	1	0.72
9192276--9192341	33	2.0	33	88	5	98	84	0	15	0	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9192699--9192740	21	2.0	20	90	4	66	35	14	9	40	1.78
9192699--9192740	20	2.1	19	86	8	57	35	14	9	40	1.78
9192846--9192975	35	3.7	35	81	4	154	33	13	10	43	1.77
9192846--9193004	17	8.9	18	72	12	114	30	13	10	45	1.76
9192892--9192974	18	4.7	18	82	13	82	30	13	13	43	1.82
9192909--9193050	34	4.0	34	74	13	117	31	12	11	43	1.79
9192895--9193058	17	9.2	17	71	15	100	30	13	12	43	1.80
9193024--9193061	20	1.9	20	100	0	76	36	10	10	42	1.74
9199566--9199727	79	2.0	80	96	1	299	29	14	17	38	1.90
9199614--9199849	122	2.0	120	93	5	406	25	14	21	37	1.92
9199732--9201010	76	16.2	78	90	5	1511	28	15	19	37	1.92
9199732--9201010	153	8.1	154	87	7	1488	28	15	19	37	1.92
9201167--9201954	81	10.0	80	84	9	855	27	16	19	35	1.94
9202121--9202233	29	3.9	29	79	4	120	36	17	5	40	1.73
9202120--9202242	58	2.1	59	83	7	153	37	17	4	39	1.72
9202576--9202654	3	26.7	3	78	14	76	72	0	27	0	0.85
9202604--9202657	7	8.1	7	81	8	51	77	0	22	0	0.76
9202601--9202657	19	3.1	19	80	12	66	77	0	22	0	0.77
9202708--9202742	18	2.0	18	94	5	63	34	40	25	0	1.56
9202893--9202942	26	2.0	25	84	4	64	34	46	20	0	1.51
9202948--9202991	5	8.8	5	82	9	54	86	0	13	0	0.57
9202953--9202992	7	5.4	7	82	11	53	87	0	12	0	0.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9202947--9202992	15	3.1	15	87	12	76	86	0	13	0	0.56
9203353--9203395	21	2.0	21	90	0	68	34	13	9	41	1.77
9203550--9203587	17	2.2	18	90	4	60	26	18	13	42	1.87
9203509--9203588	35	2.3	35	82	2	97	28	16	10	45	1.79
9203556--9203661	17	6.1	17	71	14	81	31	13	11	44	1.79
9203624--9203661	20	1.9	20	100	0	76	36	10	10	42	1.74
9213649--9213674	5	5.2	5	100	0	52	38	19	19	23	1.93
9214177--9214215	20	2.0	20	90	5	62	51	0	25	23	1.49
9216869--9216926	27	2.1	27	93	0	98	25	8	29	36	1.86
9217182--9217207	13	2.0	13	100	0	52	46	15	15	23	1.83
9217364--9217393	14	2.1	14	93	0	51	36	10	43	10	1.72
9217416--9217461	24	1.9	24	90	0	74	39	4	43	13	1.63
9218607--9218716	29	3.6	29	70	20	87	54	3	0	41	1.18
9218569--9218808	112	2.1	116	92	3	398	53	4	0	41	1.23
9218674--9218746	10	7.9	10	66	17	50	56	1	0	42	1.08
9221308--9221341	12	2.8	12	100	0	68	61	26	5	5	1.42
9221780--9221839	20	3.0	20	79	13	61	55	3	30	11	1.52
9223692--9223747	17	3.3	17	79	0	67	50	28	7	14	1.69
9237611--9237672	26	2.4	26	88	0	88	33	11	12	41	1.79
9241937--9241970	17	2.0	17	94	0	59	0	20	17	61	1.34
9247640--9247680	15	2.9	14	78	7	55	63	0	0	36	0.95
9255316--9255377	26	2.4	26	88	0	88	32	12	14	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9261427--9261689	40	6.6	39	84	4	269	25	27	21	25	1.99
9261427--9261689	120	2.2	119	82	4	307	25	27	21	25	1.99
9270268--9270306	20	2.1	19	85	9	53	41	23	0	35	1.55
9273238--9273278	15	2.9	14	78	7	55	63	0	0	36	0.95
9273352--9273392	21	2.0	20	85	4	55	60	0	4	34	1.18
9285379--9285412	17	2.0	17	88	0	50	2	14	17	64	1.40
9292365--9292405	15	2.9	14	78	7	55	63	0	0	36	0.95
9292358--9292415	29	1.9	29	86	6	80	62	1	1	34	1.16
9297579--9297619	18	2.2	19	86	4	57	26	0	12	60	1.31
9306819--9306890	36	2.0	36	100	0	144	13	11	38	36	1.81
9312680--9312730	26	2.0	24	85	7	66	31	0	1	66	1.03
9314825--9314858	17	2.0	17	88	0	50	2	17	17	61	1.46
9316863--9316898	18	2.1	17	89	5	54	22	2	2	72	1.11
9323728--9323891	86	1.9	86	81	6	199	23	17	26	32	1.96
9327048--9327079	15	2.1	15	94	0	55	15	6	9	68	1.36
9329332--9329358	13	2.1	13	100	0	54	22	0	14	62	1.31
9357145--9357176	17	1.9	17	93	6	57	59	0	9	31	1.29
9357758--9357808	21	2.4	21	83	6	59	47	0	25	27	1.53
9357758--9357800	20	2.0	20	82	8	50	44	0	30	25	1.55
9358075--9358113	20	1.9	21	89	5	62	56	20	2	20	1.54
9359474--9359526	20	2.6	21	78	6	63	39	18	26	15	1.90
9360516--9360562	24	2.0	23	84	12	60	19	4	4	72	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9361728--9361771	17	2.7	17	89	6	65	13	2	4	79	0.98
9364418--9364495	38	2.1	38	100	0	156	30	17	23	28	1.97
9365596--9365660	20	3.2	20	70	12	60	26	29	13	30	1.94
9372984--9374141	44	25.7	44	77	5	760	34	15	19	30	1.93
9373252--9373582	51	6.9	49	71	15	210	33	16	19	30	1.94
9373118--9374115	95	10.9	95	75	8	525	34	15	19	30	1.93
9373489--9373664	89	2.0	89	85	6	241	35	15	19	28	1.93
9373585--9373814	90	2.6	90	78	2	221	34	13	18	33	1.90
9374748--9374794	13	3.5	14	82	8	53	78	0	14	6	0.93
9375838--9375887	22	2.3	22	86	3	75	24	16	4	56	1.57
9377404--9377429	9	2.9	9	100	0	52	11	11	23	53	1.69
9377415--9377463	24	2.0	24	100	0	98	30	4	20	44	1.70
9378108--9378226	37	3.0	40	71	9	109	25	17	23	33	1.96
9380659--9380804	64	2.3	64	85	1	195	24	27	17	30	1.97
9381397--9381458	12	5.0	12	78	7	52	67	1	22	8	1.25
9381778--9381811	8	4.2	8	100	0	68	52	23	0	23	1.47
9381942--9381998	15	4.0	13	74	17	51	63	1	1	33	1.15
9386642--9386678	19	1.9	19	94	0	65	51	2	24	21	1.61
9387358--9387403	19	2.5	18	86	10	58	36	2	0	60	1.09
9387380--9387458	41	2.0	40	85	7	106	35	2	2	59	1.24
9387649--9387675	9	3.0	9	100	0	54	33	0	11	55	1.35
9397991--9398129	44	3.2	44	64	8	111	27	30	22	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9397977--9398476	88	5.7	88	89	1	709	30	28	21	19	1.98
9397977--9398476	177	2.8	176	87	3	711	30	28	21	19	1.98
9398212--9398355	44	3.3	44	64	11	105	29	29	20	21	1.98
9398301--9398438	44	3.1	44	64	12	104	28	26	22	23	1.99
9398476--9398617	45	3.2	45	80	6	180	28	22	19	28	1.98
9398687--9398845	50	3.2	50	71	0	147	32	20	21	25	1.97
9398852--9399270	44	9.6	43	70	12	223	29	20	21	28	1.98
9398900--9399100	85	2.3	87	81	13	211	27	19	22	29	1.98
9398837--9399253	218	1.9	219	90	1	658	29	20	21	28	1.98
9398852--9399315	218	2.1	218	85	2	594	29	20	21	28	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214